PRJNA658001 HISAT2 Samtools Flagstat MultiQC
A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
/data/jwd06/main/091/834/91834135/working/multiqc_WDir
General Statistics
| Sample Name | Reads | Reads mapped | % Reads mapped |
|---|---|---|---|
| SRR12475103 | 39.9M | 38.3M | 96.0% |
| SRR12475104 | 25.9M | 24.5M | 94.5% |
| SRR12475105 | 24.3M | 23.3M | 95.8% |
| SRR12475106 | 28.5M | 27.9M | 97.7% |
| SRR12475107 | 32.3M | 31.5M | 97.7% |
| SRR12475108 | 40.3M | 39.1M | 97.0% |
| SRR12475109 | 47.9M | 46.8M | 97.7% |
| SRR12475110 | 59.6M | 58.2M | 97.6% |
| SRR12475111 | 52.6M | 51.1M | 97.0% |
| SRR12475112 | 80.3M | 78.2M | 97.3% |
| SRR12475113 | 64.8M | 63.4M | 97.8% |
| SRR12475114 | 99.4M | 96.7M | 97.3% |
| SRR12475115 | 59.8M | 58.0M | 97.0% |
| SRR12475116 | 81.6M | 79.6M | 97.6% |
| SRR12475117 | 62.1M | 60.7M | 97.7% |
| SRR12475118 | 59.7M | 58.3M | 97.7% |
| SRR12475119 | 66.1M | 64.1M | 97.0% |
| SRR12475120 | 64.4M | 62.9M | 97.7% |
| SRR12475121 | 59.2M | 57.8M | 97.6% |
| SRR12475122 | 66.8M | 65.1M | 97.5% |
| SRR12475123 | 43.9M | 42.7M | 97.5% |
| SRR12475124 | 10.6M | 9.7M | 91.0% |
| SRR12475125 | 35.4M | 34.6M | 97.7% |
| SRR12475126 | 41.5M | 40.5M | 97.7% |
| SRR12475127 | 14.3M | 13.5M | 94.3% |
| SRR12475128 | 43.9M | 42.9M | 97.8% |
| SRR12475129 | 78.6M | 76.6M | 97.5% |
| SRR12475130 | 48.0M | 46.9M | 97.5% |
| SRR12475131 | 62.2M | 60.6M | 97.4% |
| SRR12475132 | 71.3M | 69.5M | 97.5% |
| SRR12475133 | 68.6M | 67.0M | 97.6% |
| SRR12475134 | 63.5M | 61.5M | 96.9% |
| SRR12475135 | 59.7M | 58.3M | 97.7% |
| SRR12475136 | 63.6M | 62.1M | 97.6% |
| SRR12475137 | 57.6M | 56.2M | 97.6% |
| SRR12475138 | 69.9M | 68.2M | 97.6% |
| SRR12475139 | 47.4M | 46.3M | 97.5% |
| SRR12475140 | 48.9M | 47.6M | 97.5% |
| SRR12475141 | 25.1M | 23.8M | 94.8% |
| SRR12475142 | 16.2M | 15.8M | 97.6% |
| SRR12475143 | 28.3M | 27.5M | 97.3% |
| SRR12475144 | 49.2M | 48.2M | 97.9% |
| SRR12475145 | 17.3M | 16.8M | 97.0% |
| SRR12475146 | 19.7M | 19.1M | 97.1% |
| SRR12475147 | 48.2M | 47.1M | 97.7% |
| SRR12475148 | 40.1M | 39.2M | 97.7% |
| SRR12475149 | 60.5M | 59.1M | 97.7% |
| SRR12475150 | 50.9M | 49.7M | 97.7% |
| SRR12475151 | 33.0M | 31.8M | 96.5% |
| SRR12475152 | 28.8M | 27.7M | 96.2% |
| SRR12475153 | 15.0M | 13.8M | 92.5% |
| SRR12475154 | 26.1M | 24.8M | 95.2% |
| SRR12475155 | 9.1M | 8.2M | 90.5% |
| SRR12475156 | 16.1M | 15.2M | 94.1% |
| SRR12475157 | 9.6M | 8.8M | 91.9% |
| SRR12475158 | 27.1M | 25.8M | 95.2% |
| SRR12475159 | 41.6M | 40.1M | 96.5% |
| SRR12475160 | 37.0M | 35.6M | 96.2% |
| SRR12475161 | 48.7M | 47.0M | 96.5% |
| SRR12475162 | 41.3M | 39.7M | 96.2% |
| SRR12475163 | 38.5M | 37.3M | 96.9% |
| SRR12475164 | 32.9M | 31.8M | 96.8% |
| SRR12475165 | 60.5M | 58.3M | 96.4% |
| SRR12475166 | 54.8M | 53.2M | 97.1% |
| SRR12475167 | 50.5M | 48.8M | 96.7% |
| SRR12475168 | 43.5M | 41.9M | 96.4% |
| SRR12475169 | 39.7M | 38.4M | 96.8% |
| SRR12475170 | 45.3M | 43.6M | 96.2% |
| SRR12475171 | 41.1M | 39.7M | 96.6% |
| SRR12475172 | 21.3M | 20.2M | 95.0% |
| SRR12475173 | 38.5M | 37.1M | 96.4% |
| SRR12475174 | 34.3M | 32.5M | 94.6% |
| SRR12475175 | 37.3M | 36.1M | 96.7% |
| SRR12475176 | 37.4M | 35.7M | 95.5% |
| SRR12475177 | 41.2M | 40.1M | 97.2% |
| SRR12475178 | 40.6M | 39.3M | 96.8% |
| SRR12475179 | 46.2M | 44.9M | 97.3% |
| SRR12475180 | 36.8M | 35.3M | 96.1% |
| SRR12475181 | 52.3M | 51.0M | 97.6% |
| SRR12475182 | 41.4M | 40.1M | 96.8% |
| SRR12475183 | 35.6M | 34.2M | 96.1% |
| SRR12475184 | 71.8M | 70.0M | 97.5% |
| SRR12475185 | 68.6M | 66.7M | 97.3% |
| SRR12475186 | 63.0M | 61.2M | 97.3% |
| SRR12475187 | 57.6M | 55.8M | 97.0% |
| SRR12475188 | 62.9M | 61.3M | 97.4% |
| SRR12475189 | 41.2M | 39.7M | 96.5% |
| SRR12475190 | 43.7M | 42.5M | 97.1% |
| SRR12475191 | 37.6M | 35.4M | 94.2% |
| SRR12475192 | 26.3M | 25.6M | 97.2% |
| SRR12475193 | 42.3M | 41.2M | 97.5% |
| SRR12475194 | 31.4M | 30.5M | 97.4% |
| SRR12475195 | 41.5M | 40.1M | 96.7% |
| SRR12475196 | 50.0M | 48.3M | 96.6% |
| SRR12475197 | 50.8M | 49.5M | 97.3% |
| SRR12475198 | 34.4M | 33.5M | 97.2% |
| SRR12475199 | 37.6M | 36.4M | 97.0% |
| SRR12475200 | 49.6M | 48.3M | 97.4% |
| SRR12475201 | 73.5M | 71.7M | 97.5% |
| SRR12475202 | 33.8M | 32.9M | 97.4% |
| SRR12475203 | 48.1M | 46.4M | 96.6% |
| SRR12475204 | 31.4M | 30.5M | 97.1% |
| SRR12475205 | 35.7M | 34.7M | 97.2% |
| SRR12475206 | 48.8M | 47.5M | 97.3% |
| SRR12475207 | 39.8M | 38.8M | 97.4% |
| SRR12475208 | 43.7M | 42.6M | 97.5% |
| SRR12475209 | 40.2M | 39.1M | 97.2% |
| SRR12475210 | 35.2M | 34.0M | 96.6% |
| SRR12475211 | 30.5M | 29.7M | 97.4% |
| SRR12475212 | 43.1M | 42.1M | 97.6% |
| SRR12475213 | 29.0M | 28.2M | 97.1% |
| SRR12475214 | 31.8M | 30.6M | 96.2% |
| SRR12475215 | 46.2M | 44.8M | 96.9% |
| SRR12475216 | 33.0M | 32.2M | 97.4% |
| SRR12475217 | 38.2M | 37.2M | 97.4% |
| SRR12475218 | 33.7M | 32.9M | 97.6% |
| SRR12475219 | 53.0M | 51.5M | 97.2% |
| SRR12475220 | 51.8M | 50.4M | 97.3% |
| SRR12475221 | 60.4M | 58.8M | 97.4% |
| SRR12475222 | 51.8M | 50.4M | 97.4% |
| SRR12475223 | 37.1M | 35.6M | 95.9% |
| SRR12475224 | 34.7M | 33.4M | 96.2% |
| SRR12475225 | 28.3M | 26.9M | 95.2% |
| SRR12475226 | 25.0M | 23.8M | 95.0% |
| SRR12475227 | 26.4M | 25.2M | 95.4% |
| SRR12475228 | 21.2M | 20.0M | 94.7% |
| SRR12475229 | 34.0M | 32.1M | 94.4% |
| SRR12475230 | 29.6M | 28.2M | 95.3% |
| SRR12475231 | 44.5M | 43.0M | 96.4% |
| SRR12475232 | 38.4M | 37.0M | 96.4% |
| SRR12475233 | 44.6M | 42.8M | 95.9% |
| SRR12475234 | 39.1M | 37.4M | 95.7% |
| SRR12475235 | 29.9M | 28.9M | 96.4% |
| SRR12475236 | 22.8M | 21.8M | 95.8% |
| SRR12475237 | 47.6M | 45.4M | 95.5% |
| SRR12475238 | 48.0M | 46.0M | 95.9% |
| SRR12475239 | 42.0M | 40.0M | 95.2% |
| SRR12475240 | 38.8M | 37.3M | 95.9% |
| SRR12475241 | 37.7M | 36.1M | 96.0% |
| SRR12475242 | 38.4M | 36.8M | 95.8% |
| SRR12475243 | 36.6M | 35.0M | 95.6% |
| SRR12475244 | 27.0M | 25.7M | 95.1% |
| SRR12475245 | 37.7M | 36.3M | 96.1% |
| SRR12475246 | 33.1M | 31.8M | 96.2% |
Samtools
Toolkit for interacting with BAM/CRAM files.URL: http://www.htslib.orgDOI: 10.1093/bioinformatics/btp352
Flagstat
This module parses the output from samtools flagstat